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Exonuclease combinations reduce noises in 3D genomics technologies

ABSTRACT: Exonuclease combinations reduce noises in 3D genomics technologies

PROVIDER: PRJNA517112 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR10020582_1.fastq.gz	Fastqsanger.gz
	SRR10020582_2.fastq.gz	Fastqsanger.gz
	SRR10020583_1.fastq.gz	Fastqsanger.gz
	SRR10020583_2.fastq.gz	Fastqsanger.gz
	SRR10020584_1.fastq.gz	Fastqsanger.gz

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Exonuclease combinations reduce noises in 3D genomics technologies

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Project description:Chromosome conformation-capture technologies are widely used in 3D genomics; however, experimentally, such methods have high-noise limitations and, therefore, require significant bioinformatics efforts to extract reliable distal interactions. Miscellaneous undesired linear DNAs, present during proximity-ligation, represent a main noise source, which needs to be minimized or eliminated. In this study, different exonuclease combinations were tested to remove linear DNA fragments from a circularized DNA preparation. This method efficiently removed linear DNAs, raised the proportion of annulation and increased the valid-pairs ratio from ?40% to ?80% for enhanced interaction detection in standard Hi-C. This strategy is applicable for development of various 3D genomics technologies, or optimization of Hi-C sequencing efficiency.

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